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Table 3 Direct and indirect gene-gene interactions obtained by GWAS-epistasis analyses in jPTC patients by VarElect

From: Identification of epistatic interactions through genome-wide association studies in sporadic medullary and juvenile papillary thyroid carcinomas

Direct GxG interactions
Significant interaction Not significant interaction
Gene Gene CVV Gene Gene CVV
RP11-648k4,2 DIO1 0.559 ANKRD44 STAT3 0.280
RP11-648k4,2 TPO 0.371
Indirect and significant interactions
Gene Gene CVV Gene Gene CVV
RP11-648K4.2 ARHGAP22 0.559 RP11-648k4,2 PCYT1B 0.650
ARHGEF11 0.555 PLAUR 0.851
ATP8B4 0.748 PRICKLE1 0.557
CA6 0.744 PRICKLE2 0.744
CHST8 0.555 PRKAG2 0.556
CNTN2 0.557 RNF14 0.650
COL19A1 0.651/0.555 ROBO2 0.646
COL24A1 0.747 RYR3 0.559
CRMP1 0.744 SEMA6D 0.558
DMGDH 0.747 SGCG 0.557
EXTL3 0.747 SKI 0.557
FLI1 0.649 SLC5A1 0.654
GALNS 0.650 SLC5A4 0.652
GALNT16 0.555/0.555 SYNE1 0.650
GCN1L1 0.650/0.650 TICRR 0.844
GPR45 0.555 UNC5B 0.744
GRM7 0.740 ZNF529 0.650
H19 0.556 ZNF662 0.653
HDAC9 0.649 ZNF793 0.653
KIFC3 0.937 ANKRD44 DOCK1 0.652
KIR3DL1 0.744 HDAC9 0.652
LOXL1 0.743 PPP2R2A 0.652
MAGED1 0.649 PRKCB 0.558
MAGI1 0.650 SESN1 0.652
NCAM1 0.650 SLC1A1 0.558
NPAS3 0.652 WIPI1 0.942
NUP107 0.649 DCC C6orf100 0.651
OPCML 0.743 ERI3 0.937
OR5AL1 0.744 EXTL3 0.748
PARP1 0.950/0.650/0.650 GCN1L1 0.558
  1. More than one value in cross-validation value (CVV) cells means more than one interaction between these genes